The Reproducible Bioinformatics project

Reproducible Bioinformatics is a non-profit and open-source project.

We are a group of Bioinformaticians interested to simplify the use of bioinformatics tools to Biologists w/wo scripting ability. At the same time we are interested in providing robust and reproducible workflows.

How to be part of the Reproducible Bioinformatics project

Any bioinformatician interested to embed specific applications in the available workflows or interested to develop a new workflow is requested to embed the application(s) in a docker image, save it in a public repository and configure one or more R functions that can be used to interact with the docker image.

Steps required to submit a new application/workflow:

Edit the skeleton.R function and the ubuntu docker image (docker.io/repbioinfo/ubuntu) to create the new application.

The SeqBox Project

Short reads sequencing technology has been used for more than a decade now. However, the analysis of RNAseq and ChIPseq data is still computational demanding and the simple access to raw data does not guarantee results reproducibility between laboratories. To address these two aspects, we developed SeqBox, a cheap, efficient and reproducible RNAseq/ChIPseq hardware/software solution based on NUC6I7KYK mini-PC (an Intel consumer game computer with a fast processor and a high performance SSD disk), and Docker container platform. In SeqBox the analysis of RNAseq and ChIPseq data is supported by a friendly GUI. This allows access to fast and reproducible analyses also to scientists with/without scripting experience.

More info on SeqBox characteristics and cost are available at www.seqbox.com